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TSA-Seq 2.0 reveals both conserved and variable chromosomal distances to nuclear speckles

By Liguo Zhang, Yang Zhang, Yu Chen, Omid Gholamalamdari, Jian Ma, Andrew S. Belmont

Posted 30 Oct 2019
bioRxiv DOI: 10.1101/824433

TSA-Seq measures chromosomal distances from specific nuclear compartments genome-wide but requires ≥100 million cells. We report 10-20-fold increased sensitivity using TSA-Seq 2.0 which deliberately saturates protein-labeling but preserves distance mapping by the still unsaturated DNA-labeling. Mapping nuclear speckle distances in four cell lines reveals highly transcriptionally active, conserved speckle-associated chromosome domains but relative shifts of a small fraction of the genome that highly correlates with changes in gene expression.

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